Histone marks enrichment analysis · Biostar

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Histone marks enrichment analysis

Hello everyone, here's my question:

I have a bed file of human genomic coordinates (hg19), and I would like to know whether ChIP-seq peaks for specific histone marks (such as those from ENCODE) are significantly more represented within my test regions compared to a background (another bed file). Is there any tool which would allow me to do that?

Thanks in advance.

rna-seq

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updated 5.0 years ago by Ankit

• written 5.0 years ago by gspirito •

Use bedtools intersect and count the overlapped regions for your two peak files (separately) against hg19 bed file.

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written 5.0 years ago by Ankit

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